Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Correlation of Experimental Data01:23

Correlation of Experimental Data

480
Dimensional analysis simplifies complex physical problems and guides experimental investigations, but it does not provide complete solutions. It identifies the dimensionless groups that influence a phenomenon, but experimental data is needed to establish the specific relationships and validate theoretical predictions.
For example, a spherical particle moving through a viscous fluid experiences drag. Dimensional analysis shows that the drag force depends on the particle's diameter, velocity,...
480
Introduction to Membrane Proteins01:16

Introduction to Membrane Proteins

80.7K
The cell membrane, or plasma membrane, is an ever-changing landscape. It is described as a fluid mosaic where various macromolecules are embedded in the phospholipid bilayer. Among the macromolecules are proteins. The protein content varies across cell types. For example, mitochondrial inner membranes contain ~76% protein content, while myelin contains ~18% protein content. Individual cells contain many types of membrane proteins—red blood cells contain over 50—and different cell...
80.7K
Porin Insertion in the Outer Mitochondrial Membrane01:12

Porin Insertion in the Outer Mitochondrial Membrane

4.7K
Porins are beta-barrel proteins translocated to the mitochondrial outer membrane through the TOM complex into the intermembrane space. Porin precursors bind TIM chaperones within the intermembrane space and are guided to the Sorting and Assembly Machinery complex or SAM complex on the outer mitochondrial membrane.
Three models describe the assembly of porins by the SAM complex and their insertion into the outer membrane. Model 1 suggests that porins are assembled outside the SAM channel as the...
4.7K
Harmonic Mean01:09

Harmonic Mean

3.6K
The arithmetic mean is usually skewed towards the larger values in the data set. Therefore, to avoid this inherent bias towards smaller values, the harmonic mean is used.
Take the example of the speed of a car, which is the measure of the rate of distance traveled. If the vehicle traverses the same distance back-and-forth, its average speed equals the total distance traveled divided by the total time taken. However, if the car moves with varying speeds, then the arithmetic mean is more skewed...
3.6K
Yeast Signaling01:28

Yeast Signaling

17.2K
Yeasts are single-celled organisms, but unlike bacteria, they are eukaryotes (cells with a nucleus). Cell signaling in yeast is similar to signaling in other eukaryotic cells. A ligand, such as a protein or a small molecule released from a yeast cell, attaches to a receptor on the cell surface. The binding stimulates second-messenger kinases to activate or inactivate transcription factors that further regulate gene expression. Many of the yeast intracellular signaling cascades have similar...
17.2K
Membrane Proteins01:30

Membrane Proteins

29.3K
Plasma membranes have integral transmembrane proteins involved in facilitated transport. These proteins are collectively referred to as transport proteins, and they function as either channels for the material or as carriers themselves. Channel proteins have hydrophilic domains exposed to the intracellular and extracellular fluids and a hydrophilic channel through their core that provides a hydrated opening for solutes to pass through the membrane layers. Passage through the channel allows...
29.3K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Conformational changes upon pore blocker removal reveal conductive states of TMEM16A.

The Journal of general physiology·2026
Same author

Inhibiting the interaction between the mitochondrial receptor Tom70 and SARS CoV 2 Orf9b with small molecules.

bioRxiv : the preprint server for biology·2026
Same author

Targeting the Protein-Membrane Interface Enables Design of Long-Acting CFTR Potentiators.

ACS chemical biology·2026
Same author

Rad6-mediated ubiquitination regulates the formation of Sam1-containing stress granules during nutrient stress in budding yeast.

Biochemical and biophysical research communications·2026
Same author

Identification of the MRTFA/SRF pathway as a critical regulator of quiescence and chemotherapy resistance in cancer.

Cancer letters·2026
Same author

CLCC1 promotes hepatic neutral lipid flux and nuclear pore complex assembly.

Nature·2026

Related Experiment Video

Updated: Jan 21, 2026

Co-Translational Insertion of Membrane Proteins into Preformed Nanodiscs
08:24

Co-Translational Insertion of Membrane Proteins into Preformed Nanodiscs

Published on: November 19, 2020

3.9K

Harmonizing Experimental Data with Modeling to Predict Membrane Protein Insertion in Yeast.

Christopher J Guerriero1, Yessica K Gomez2, Grant J Daskivich1

  • 1Department of Biological Sciences, University of Pittsburgh, Pittsburgh, Pennsylvania.

Biophysical Journal
|August 11, 2019
PubMed
Summary
This summary is machine-generated.

Achieving correct membrane protein topology is challenging due to marginally hydrophobic transmembrane helices (TMHs). This study reveals that physics-based models better predict TMH insertion energy in yeast compared to knowledge-based scales.

More Related Videos

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates
10:33

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

Published on: February 23, 2018

26.0K
Split-Ubiquitin Based Membrane Yeast Two-Hybrid MYTH System: A Powerful Tool For Identifying Protein-Protein Interactions
14:04

Split-Ubiquitin Based Membrane Yeast Two-Hybrid MYTH System: A Powerful Tool For Identifying Protein-Protein Interactions

Published on: February 1, 2010

31.9K

Related Experiment Videos

Last Updated: Jan 21, 2026

Co-Translational Insertion of Membrane Proteins into Preformed Nanodiscs
08:24

Co-Translational Insertion of Membrane Proteins into Preformed Nanodiscs

Published on: November 19, 2020

3.9K
A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates
10:33

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

Published on: February 23, 2018

26.0K
Split-Ubiquitin Based Membrane Yeast Two-Hybrid MYTH System: A Powerful Tool For Identifying Protein-Protein Interactions
14:04

Split-Ubiquitin Based Membrane Yeast Two-Hybrid MYTH System: A Powerful Tool For Identifying Protein-Protein Interactions

Published on: February 1, 2010

31.9K

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Biophysics

Background:

  • Membrane protein topology is crucial for function.
  • Marginally hydrophobic transmembrane helices (TMHs) pose challenges for correct membrane insertion.
  • Existing models for predicting TMH insertion energy have limitations.

Purpose of the Study:

  • To investigate the insertion free energies of a model membrane protein with a marginally hydrophobic TMH2 in yeast.
  • To compare the predictive power of knowledge-based and physics-based energy scales for TMH insertion.
  • To understand how mutations affect TMH insertion and cellular quality control.

Main Methods:

  • Constructed a model membrane protein reporter in yeast with two TMHs and an unstable nucleotide-binding domain.
  • Generated variants to alter the insertion free energy of the second TMH (TMH2).
  • Assessed protein degradation, correlated predicted and apparent insertion free energies, and employed molecular dynamics simulations.

Main Results:

  • Altering TMH2 did not significantly impact protein degradation by cellular quality control.
  • Knowledge-based energy scales showed a similar trend but a narrower range than experimental values.
  • Physics-based models provided a broader range of free energies that better matched experimental data.
  • Molecular dynamics simulations revealed that mutations induced conformational changes affecting hydrogen bonds in TMH2.

Conclusions:

  • Physics-based models offer improved prediction of TMH insertion free energies compared to knowledge-based scales.
  • Cellular quality control can recognize conformationally distinct misfolded topomers.
  • The study provides a model for assessing TMH insertion in vivo and highlights limitations of current energy scales.